Simone Fonda

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We present a method to simulate biochemical networks described by the graphical notation of Molecular Interaction Maps within stochastic Concurrent Constraint Programming. Such maps are compact, as they represent implicitly a wide set of reactions, and therefore not easy to simulate with standard tools. The encoding we propose is capable to stochastically(More)
It is a common opinion that today's digital libraries (DL) can no longer be simple " expositions' of digital objects. Users should no more be passive readers, they need to interact with the library, add their annotations and tags, personalize their experience and collaborate with each other. Web 2.0 technologies, such as social bookmarking and online(More)
This paper introduces Pundit 3 : a novel semantic annotation tool that allows users to create structured data while annotating Web pages relying on stand-off markup techniques. Pundit provides support for different types of annotations, ranging from simple comments to semantic links to Web of data entities and fine granular cross-references and citations.(More)
This paper discusses the application of Pundit, a novel semantic annotation tool, in the case study of Burckhardt's correspondence. In this context the occurrences of persons and places names as well as references to works of art in the letters are being semantically annotated and linked to the Web of Data. Such an experiment has a two fold goal. The first(More)
This paper presents Pundit, a novel semantic web annotation tool, and demonstrates its use in producing structured data out of users annotations. Pundit allows communities of scholars to produce machine-readable annotations that can be made public and thus consumable as web data via SPARQL and ad-hoc REST APIs. Pundit is highly con-figurable and can(More)
DiCANN is an advanced pattern recognition laboratory system that is being developed to automatically categorise marine HAB Dinoflagellate specimens. A prototype of the system demonstrated accurate categorisation of 23 species of Dinoflagellate from microscope images. The project partners are also developing calibration techniques and standards for this new(More)
Preface Bioinformatics is a challenging and fast growing area of research, which is of utmost importance for our understanding of life. Major contributions to this discipline can have thousands of positive effects in medicine, agriculture, or industry. To pick out only a few examples, Bioinformatics tackles problems related to: • Recognition, analysis, and(More)
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